Difference between revisions of "SOCR News IBRO INSF Malaysia 2017"

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== [[SOCR_News | SOCR Events]] - INCF/IBRO 2017 Neuroscience Summer School and 2017 Malaysia Telemedicine Conference==
 
== [[SOCR_News | SOCR Events]] - INCF/IBRO 2017 Neuroscience Summer School and 2017 Malaysia Telemedicine Conference==
 +
 +
[[Image:SOCR_D3_JavaScript_Viewer.png|250px|thumbnail|right| INCF/IBRO Summer School]]
  
 
=== Logistics ===
 
=== Logistics ===
−
* IBRO-APRC School on Neuroinformatics and Brain Connectivity Analysis 2017 Kuala Lumpur,  Malaysia
+
* [http://ibro.info/events/applications-open-for-ibro-aprc-school-on-neuroinformatics-and-brain-network-analysis/ IBRO-APRC/INCF School on Neuroinformatics and Brain Connectivity Analysis 2017], Kuala Lumpur,  Malaysia
 
* Dates: Sunday, August 06, 2017 09:00 PM -- Saturday, August 19, 2017 05:00 AM
 
* Dates: Sunday, August 06, 2017 09:00 PM -- Saturday, August 19, 2017 05:00 AM
 
* Location: [http://cape.utp.edu.my/contact-us/ Centre For Advanced And Professional Education (CAPE), Menara Kembar Bank Rakyat]
 
* Location: [http://cape.utp.edu.my/contact-us/ Centre For Advanced And Professional Education (CAPE), Menara Kembar Bank Rakyat]
 
* [https://www.trelliscience.com/#/group-home/1576 IBRO/INCF 2017 Summer School Trellis Forum] (protected)
 
* [https://www.trelliscience.com/#/group-home/1576 IBRO/INCF 2017 Summer School Trellis Forum] (protected)
 +
* Webcast: [https://www.youtube.com/watch?v=ptMCu4mIbI8&t=0s&list=PLWYWUwcywqfgW868At5pXdOOy_q2XcWhy&index=4 (archived YouTube) videos]
  
  
−
Prof. Dinov's lectures are listed below.
+
'''Outlines of Prof. Dinov's lectures are listed below.'''
  
 
===Aug 10, 2017 (Statistical Computing) ===
 
===Aug 10, 2017 (Statistical Computing) ===
 +
[[Image:SMHS_SciVisualization_V2.png|250px|thumbnail|right| Statistical Computing]]
 
* [http://DSPA.predictive.space Data Science and Predictive Analytics]  
 
* [http://DSPA.predictive.space Data Science and Predictive Analytics]  
 
** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/00_Motivation.html Motivation]
 
** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/00_Motivation.html Motivation]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/20_PredictionCrossValidation.html XX. Forecasting and Prediction with Statistical Cross-Validation]
 
** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/20_PredictionCrossValidation.html XX. Forecasting and Prediction with Statistical Cross-Validation]
 
** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/22_DeepLearning.html XXII. Deep Learning and Neural Networks]
 
** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/22_DeepLearning.html XXII. Deep Learning and Neural Networks]
−
** [https://umich.instructure.com/courses/38100/files/folder/Case_StudiesDatasets & Case-Studies]  
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** [https://umich.instructure.com/courses/38100/files/folder/Case_Studies Datasets & Case-Studies]
  
 
===Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)===
 
===Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)===
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[[Image:PL_GSA_Schematic.png|250px|thumbnail|right| Statistical Computing]]
−
* [http://pipeline.loni.usc.eduPipeline Environment]  
+
* [http://pipeline.loni.usc.edu Pipeline Environment]  
 
* [http://pipeline.loni.usc.edu/learn/user-guide/ Pipeline Client GUI] – data, modules and workflow objects
 
* [http://pipeline.loni.usc.edu/learn/user-guide/ Pipeline Client GUI] – data, modules and workflow objects
 
* [http://pipeline.loni.usc.edu/learn/user-guide/creating-modules/#Simple%20modules Module definition] and [http://pipeline.loni.usc.edu/learn/user-guide/building-a-workflow/#Building%20a%20workflow workflow construction]  
 
* [http://pipeline.loni.usc.edu/learn/user-guide/creating-modules/#Simple%20modules Module definition] and [http://pipeline.loni.usc.edu/learn/user-guide/building-a-workflow/#Building%20a%20workflow workflow construction]  
−
* [https://wiki.loni.usc.edu/index.php/Main_PagePipeline workflows documentation]
+
* [https://wiki.loni.usc.edu/index.php/Main_Page Pipeline workflows documentation]
 
* [http://pipeline.loni.usc.edu/explore/library-navigator/ Pipeline Workflow Library]
 
* [http://pipeline.loni.usc.edu/explore/library-navigator/ Pipeline Workflow Library]
 
* [http://pipeline.loni.usc.edu/files/miner/ Pipeline workflow miner]  
 
* [http://pipeline.loni.usc.edu/files/miner/ Pipeline workflow miner]  
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*** Simple 3 cohort study of dementia
 
*** Simple 3 cohort study of dementia
 
*** ''/ifs/loni/ccb/collabs/2017/INCF_IBRO_SummerSchool''
 
*** ''/ifs/loni/ccb/collabs/2017/INCF_IBRO_SummerSchool''
−
*** GSA workflow (ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv)
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*** GSA workflow ([https://umich.instructure.com/files/5062660/download?download_frd=1 ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv])
 
* [https://wiki.loni.usc.edu/index.php/Global_Shape_Analysis_(GSA)_Workflow GSA Doc]
 
* [https://wiki.loni.usc.edu/index.php/Global_Shape_Analysis_(GSA)_Workflow GSA Doc]
 
* [http://bit.ly/1Djhihs GSA Try-It-Now], Try-It Now server; Cranium -> LONI -> Global Shape Analysis - Two Groups (Complete) workflow
 
* [http://bit.ly/1Djhihs GSA Try-It-Now], Try-It Now server; Cranium -> LONI -> Global Shape Analysis - Two Groups (Complete) workflow
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===Aug 15-16, 2017 3<sup>rd</sup> Malaysia Telemedicine Conference (2017)===
 
===Aug 15-16, 2017 3<sup>rd</sup> Malaysia Telemedicine Conference (2017)===
−
The theme of the [https://www.facebook.com/Malaysia-Telemedicine-Conference-787730134636385/ 2017 Malaysia Telemedicine Conference is Healthcare for Tomorrow - The Disruptions Begins]. Prof. Dinov's Keynote Presentation, ''Predictive Data Analytics'', Tuesday, 15 August 2017 at 9.00-9.45 AM, Sunway Medical Centre, Hospital Pusat Perubatan Sunway, 5, Jalan Lagoon Selatan, Bandar Sunway, 47500 Petaling Jaya, Selangor
+
[[Image:Dinov_BigData_Schematic.png|250px|thumbnail|right| Statistical Computing]]
 +
The theme of the [http://med.monash.edu.my/campaign/telemed/index.html 2017 Malaysia Telemedicine Conference] is ''Healthcare for Tomorrow - The Disruptions Begin''. Prof. Dinov's Keynote Presentation is titled ''Predictive Data Analytics'', Tuesday, 15 August 2017 at 9.00-9.45 AM, Sunway Medical Centre, Hospital Pusat Perubatan Sunway, 5, Jalan Lagoon Selatan, Bandar Sunway, 47500 Petaling Jaya, Selangor
  
 
* [http://socr.umich.edu/docs/uploads/Dinov_PredictiveDataAnalytics_2017_MalaysiaTelemedicine.pdf Lecture notes (PDF)]  
 
* [http://socr.umich.edu/docs/uploads/Dinov_PredictiveDataAnalytics_2017_MalaysiaTelemedicine.pdf Lecture notes (PDF)]  
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=== Aug 18, 2017 (Neuroimaging-genetics)===
 
=== Aug 18, 2017 (Neuroimaging-genetics)===
 +
[[Image:PL_GenomicsComputing.png|250px|thumbnail|right| Statistical Computing]]
 +
* Use [http://wiki.stat.ucla.edu/socr/uploads/8/84/R_invocationExample.pipe.zip these data and a skeleton of an R-script] to generate a batch mode R invocation that runs in the pipeline as a module, computes some models (ALS dataset is included in the ZIP file) and saves the results locally in a file. See also the [http://bit.ly/1Djhi0Q Pipeline R-invocation example].
 
* [https://github.com/SOCR/PBDA  Predictive Big Data Analytics (PBDA/PD)]
 
* [https://github.com/SOCR/PBDA  Predictive Big Data Analytics (PBDA/PD)]
 
* PLINK association workflow
 
* PLINK association workflow
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** http://bit.ly/1BuiI5j  
 
** http://bit.ly/1BuiI5j  
 
* [https://wiki.loni.usc.edu/index.php/LONI_Pipeline_Genomics_and_Informatics_Workflow_Solutions  Pipeline bioinformatics and Genomics computing pipeline workflows]  
 
* [https://wiki.loni.usc.edu/index.php/LONI_Pipeline_Genomics_and_Informatics_Workflow_Solutions  Pipeline bioinformatics and Genomics computing pipeline workflows]  
 +
* [http://wiki.stat.ucla.edu/socr/index.php/SOCR_EduMaterials_AnalysesCommandLineVolumeMultipleRegression#Volume_Multiple_Linear_Regression_Usage Design Matrices] and [http://pipeline.loni.usc.edu/learn/user-guide/building-a-workflow/#Study Study-Modules]: e.g., [https://umich.instructure.com/files/5062660/download?download_frd=1 12_ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv]; save this CSV file locally, open the pipeline client, drag-and-drop the CSV into the workflow canvas, specify the second column as carrying the references to the imaging volumes, construct the study-module and plug it into the GSA workflow as input data
 
* Examples of published studies
 
* Examples of published studies
 
** Moon, S., Dinov, ID, Kim, J, Zamanyan, A, Hobel, S, Thompson, PM, Toga, AW (2015) [http://dx.doi.org/10.3233/JAD-150335 Structural Neuroimaging Genetics Interactions in Alzheimer's Disease]. Journal of Alzheimer's Disease, 48(4):1051-63, doi: 10.3233/JAD-150335 (PMID: 26444770)
 
** Moon, S., Dinov, ID, Kim, J, Zamanyan, A, Hobel, S, Thompson, PM, Toga, AW (2015) [http://dx.doi.org/10.3233/JAD-150335 Structural Neuroimaging Genetics Interactions in Alzheimer's Disease]. Journal of Alzheimer's Disease, 48(4):1051-63, doi: 10.3233/JAD-150335 (PMID: 26444770)
 
** Moon, SW, Dinov, ID, Hobel, S, Zamanyan, A, Choi, YC, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) [http://dx.doi.org/10.1111/jon.12252 Structural Brain Changes in Early-Onset Alzheimer's Disease Subjects Using the LONI Pipeline Environment]. Journal of Neuroimaging, 25(5):728–737,. DOI: 10.1111/jon.12252
 
** Moon, SW, Dinov, ID, Hobel, S, Zamanyan, A, Choi, YC, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) [http://dx.doi.org/10.1111/jon.12252 Structural Brain Changes in Early-Onset Alzheimer's Disease Subjects Using the LONI Pipeline Environment]. Journal of Neuroimaging, 25(5):728–737,. DOI: 10.1111/jon.12252
 
** Moon, SW, Dinov ID, Zamanyan, A, Shi, R, Genco, A, Hobel, S, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) [http://dx.doi.org/10.4306/pi.2015.12.1.125 Gene Interactions and Structural Brain Change in Early-Onset Alzheimer's Disease Subjects Using the Pipeline Environment]. Psychiatry Investigation, 12(1):125-135. DOI: 10.4306/pi.2015.12.1.125
 
** Moon, SW, Dinov ID, Zamanyan, A, Shi, R, Genco, A, Hobel, S, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) [http://dx.doi.org/10.4306/pi.2015.12.1.125 Gene Interactions and Structural Brain Change in Early-Onset Alzheimer's Disease Subjects Using the Pipeline Environment]. Psychiatry Investigation, 12(1):125-135. DOI: 10.4306/pi.2015.12.1.125
 +
** Torri, F., Dinov, ID, Zamanyan, A, Hobel, S, Genco, A, Petrosyan, P, Clark, AP, Liu, Z, Eggert, P, Pierce, J, Knowles, JA, Ames, J, Kesselman, C, Toga, AW, Potkin, SG, Vawter, MP, Macciardi, F. (2012) [http://dx.doi.org/10.3390/genes3030545 Next Generation Sequence Analysis and Computational Genomics Using Graphical Pipeline Workflows], Genes, 3(3):545-575; doi:10.3390/genes3030545.
  
 
<hr>
 
<hr>

Latest revision as of 07:15, 4 October 2018

SOCR Events - INCF/IBRO 2017 Neuroscience Summer School and 2017 Malaysia Telemedicine Conference

INCF/IBRO Summer School

Logistics


Outlines of Prof. Dinov's lectures are listed below.

Aug 10, 2017 (Statistical Computing)

Statistical Computing

Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)

Statistical Computing

Aug 15-16, 2017 3rd Malaysia Telemedicine Conference (2017)

Statistical Computing

The theme of the 2017 Malaysia Telemedicine Conference is Healthcare for Tomorrow - The Disruptions Begin. Prof. Dinov's Keynote Presentation is titled Predictive Data Analytics, Tuesday, 15 August 2017 at 9.00-9.45 AM, Sunway Medical Centre, Hospital Pusat Perubatan Sunway, 5, Jalan Lagoon Selatan, Bandar Sunway, 47500 Petaling Jaya, Selangor

  • Lecture notes (PDF)
  • Outline
    • Driving biomedical problems and motivational health challenges
      • Neurodegeneration
      • Pheno-Geno-Enviro
    • Common Characteristics of Big (Biomedical and Health) Data
    • Data science
    • Predictive analytics
    • Case-studies
    • Tomorrow’s Healthcare: The Age of Disruptions
      • Open Problems
      • Future Healthcare Innovation & Delivery

Aug 18, 2017 (Neuroimaging-genetics)

Statistical Computing

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